7163b3185a62d72d7e055a6f161c7c71744e63f4 gperez2 Wed Dec 16 10:19:40 2020 -0800 Updating news for assembly hubs isPcr feature, refs #21446 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index c2e24d3..506483a 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -40,30 +40,47 @@ <div class="col-sm-3"> <ul> <li><a href="#2005">2005 News</a></li> <li><a href="#2004">2004 News</a></li> <li><a href="#2003">2003 News</a></li> <li><a href="#2002">2002 News</a></li> <li><a href="#2001">2001 News</a></li> </ul> </div> </div> </div> <!-- ============= 2020 archived news ============= --> <a name="2020"></a> +<a name="121620"></a> +<h2>Dec. 16, 2020 New In-Silico PCR feature for assembly hubs</h2> +<p> +We are excited to announce assembly hubs can now perform In-Silico PCR. Assembly hub developers +have long been able to activate DNA and amino acid BLAT searches on their hubs by running gfServers +from their institution, and now with the new isPcr setting, they can enable In-Silico PCR searches too +using the same running gfServers. In-Silico PCR searches a sequence database with a pair of PCR primers, +using an indexing strategy for fast performance to find target regions across the genome. Browser users without an +institution to host gfServers can still benefit from this new feature by downloading and installing a virtual machine +<a href="help/gbib.html">Genome Browser in a Box (GBiB)</a>, and alternatively running gfServers on the GBiB, all +locally from a laptop. For more information see the <a href="http://genomewiki.ucsc.edu/index.php/Assembly_Hubs" +target="_blank">Assembly Hub Wiki</a> and the <a href="help/hubQuickStartAssembly.html" +target="_blank">Quick Start Guide to Assembly Hubs</a>.</p> + +<p> +We would like to thank Brian Raney and Gerardo Perez for their work on this release.</p> + <a name="121520"></a> <h2>Dec. 15, 2020 New V35 GENCODE genes track for Human (hg19/GRCh37)</h2> <p> We are pleased to announce a new GENCODE Genes annotation track, which corresponds to <a href="http://www.ensembl.info/2020/08/20/ensembl-101-has-been-released/" target="_blank">Ensembl 101</a>, for the: <a target="_blank" href="../../cgi-bin/hgTrackUi?db=hg19&c=chr21&g=wgEncodeGencodeV35lift37">hg19/GRCh37</a> assembly. The GENCODE V35 annotations were mapped to hg38/GRCh38 and then back-mapped to the hg19/GRCh37 assembly. The gene set contains the following tracks:</p> <ul> <li>Basic - a subset of the <em>Comprehensive set</em>.</li> <li>Comprehensive - all GENCODE coding and non-coding transcript annotations, including polymorphic pseudogenes. This includes both manual and automatic annotations.</li> <li>Pseudogenes - all annotations except polymorphic pseudogenes.</li></ul>